Literature DB >> 21202300

1-Cyclo-hexyl-methyl-3-methyl-2-[(phenyl-imino)(sulfido)meth-yl]benzimidazolium.

Mehmet Akkurt, Selvi Karaca, Hasan Küçükbay, Nihat Sireci, Orhan Büyükgüngör.   

Abstract

In the zwitterionic title compound, C(22)H(25)N(3)S, the benzimid-azole ring system makes a dihedral angle of 55.69 (11)° with the phenyl ring. In the crystal structure, inter- and intra-molecular C-H⋯S inter-actions occur.

Entities:  

Year:  2008        PMID: 21202300      PMCID: PMC2961076          DOI: 10.1107/S1600536808008842

Source DB:  PubMed          Journal:  Acta Crystallogr Sect E Struct Rep Online        ISSN: 1600-5368


Related literature

For related structures, see: Öztürk et al. (2004 ▶); Akkurt et al. (2005 ▶). For background, see: Allen et al. (1987 ▶); Cremer & Pople (1975 ▶); Küçükbay et al. (1995 ▶); Winberg & Coffman (1965 ▶).

Experimental

Crystal data

C22H25N3S M = 363.52 Monoclinic, a = 11.0999 (8) Å b = 12.4601 (7) Å c = 15.0143 (14) Å β = 99.007 (7)° V = 2051.0 (3) Å3 Z = 4 Mo Kα radiation μ = 0.17 mm−1 T = 296 K 0.62 × 0.56 × 0.51 mm

Data collection

Stoe IPDSII diffractometer Absorption correction: integration (X-RED32; Stoe & Cie, 2002 ▶) T min = 0.903, T max = 0.919 11769 measured reflections 3997 independent reflections 2727 reflections with I > 2σ(I) R int = 0.031

Refinement

R[F 2 > 2σ(F 2)] = 0.046 wR(F 2) = 0.127 S = 1.02 3997 reflections 236 parameters H-atom parameters constrained Δρmax = 0.36 e Å−3 Δρmin = −0.37 e Å−3 Data collection: X-AREA (Stoe & Cie, 2002 ▶); cell refinement: X-AREA; data reduction: X-RED32 (Stoe & Cie, 2002 ▶); program(s) used to solve structure: SIR97 (Altomare et al., 1999 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 for Windows (Farrugia, 1997 ▶); software used to prepare material for publication: WinGX (Farrugia, 1999 ▶). Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536808008842/hb2714sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536808008842/hb2714Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C22H25N3SF000 = 776
Mr = 363.52Dx = 1.177 Mg m3
Monoclinic, P21/cMo Kα radiation λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 12543 reflections
a = 11.0999 (8) Åθ = 1.4–28.0º
b = 12.4601 (7) ŵ = 0.17 mm1
c = 15.0143 (14) ÅT = 296 K
β = 99.007 (7)ºBlock, yellow
V = 2051.0 (3) Å30.62 × 0.56 × 0.51 mm
Z = 4
Stoe IPDSII diffractometer3997 independent reflections
Monochromator: plane graphite2727 reflections with I > 2σ(I)
Detector resolution: 6.67 pixels mm-1Rint = 0.031
T = 296 Kθmax = 26.0º
ω scansθmin = 1.9º
Absorption correction: integration(X-RED32; Stoe & Cie, 2002)h = −13→13
Tmin = 0.903, Tmax = 0.919k = −15→13
11769 measured reflectionsl = −18→18
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.046H-atom parameters constrained
wR(F2) = 0.127  w = 1/[σ2(Fo2) + (0.0746P)2] where P = (Fo2 + 2Fc2)/3
S = 1.02(Δ/σ)max < 0.001
3997 reflectionsΔρmax = 0.36 e Å3
236 parametersΔρmin = −0.37 e Å3
Primary atom site location: structure-invariant direct methodsExtinction correction: none
Geometry. Bond distances, angles etc. have been calculated using the rounded fractional coordinates. All su's are estimated from the variances of the (full) variance-covariance matrix. The cell e.s.d.'s are taken into account in the estimation of distances, angles and torsion angles
Refinement. Refinement on F2 for ALL reflections except those flagged by the user for potential systematic errors. Weighted R-factors wR and all goodnesses of fit S are based on F2, conventional R-factors R are based on F, with F set to zero for negative F2. The observed criterion of F2 > σ(F2) is used only for calculating -R-factor-obs etc. and is not relevant to the choice of reflections for refinement. R-factors based on F2 are statistically about twice as large as those based on F, and R-factors based on ALL data will be even larger.
xyzUiso*/Ueq
S10.40319 (5)0.79425 (5)0.26689 (5)0.0886 (2)
N10.28968 (12)0.63297 (12)0.44357 (9)0.0502 (5)
N20.34915 (12)0.54355 (11)0.33351 (9)0.0487 (4)
N30.16469 (13)0.75498 (13)0.28359 (10)0.0572 (5)
C10.32300 (14)0.53150 (14)0.47690 (11)0.0503 (6)
C20.32500 (17)0.48719 (19)0.56177 (13)0.0650 (7)
C30.36543 (19)0.3831 (2)0.57255 (16)0.0738 (8)
C40.40346 (18)0.32577 (18)0.50294 (17)0.0738 (8)
C50.40103 (17)0.36931 (16)0.41825 (15)0.0632 (7)
C60.36035 (14)0.47437 (14)0.40713 (12)0.0494 (5)
C70.30640 (14)0.63806 (14)0.35726 (11)0.0465 (5)
C80.2483 (2)0.72060 (18)0.49579 (14)0.0687 (7)
C90.27958 (15)0.73442 (14)0.29906 (11)0.0507 (5)
C100.11976 (17)0.84557 (17)0.23179 (13)0.0614 (6)
C110.1515 (2)0.94910 (19)0.25693 (16)0.0791 (8)
C120.0936 (3)1.0351 (2)0.2082 (2)0.1043 (11)
C130.0082 (3)1.0155 (4)0.1341 (3)0.1179 (14)
C14−0.0228 (3)0.9139 (4)0.1091 (2)0.1084 (13)
C150.03093 (19)0.8291 (2)0.15829 (15)0.0815 (9)
C160.38428 (16)0.51876 (17)0.24565 (12)0.0577 (6)
C170.27793 (17)0.49794 (17)0.17240 (12)0.0612 (7)
C180.3246 (2)0.4812 (2)0.08393 (14)0.0816 (9)
C190.2221 (3)0.4596 (3)0.00661 (17)0.1112 (15)
C200.1411 (3)0.3698 (3)0.02668 (19)0.1048 (11)
C210.0958 (3)0.3852 (3)0.1148 (2)0.1050 (11)
C220.2009 (2)0.4028 (2)0.19119 (16)0.0819 (9)
H20.300400.525800.608800.0780*
H30.367300.350100.628300.0890*
H40.431400.255900.513600.0890*
H50.425300.330400.371300.0760*
H8A0.259700.787700.466800.0830*
H8B0.294500.720600.555400.0830*
H8C0.163300.711100.499400.0830*
H110.211400.961900.306400.0950*
H120.113001.105200.226000.1250*
H13−0.028901.072700.100600.1410*
H14−0.080800.901400.058300.1300*
H150.007000.759500.141700.0980*
H16A0.436600.456000.252000.0690*
H16B0.431300.578300.227500.0690*
H170.225800.561800.166500.0730*
H18A0.380800.421100.089900.0980*
H18B0.369000.544600.070300.0980*
H19A0.173600.52420−0.005900.1330*
H19B0.256800.44200−0.047000.1330*
H20A0.185800.302800.028300.1260*
H20B0.071900.36490−0.021400.1260*
H21A0.049800.322400.127700.1260*
H21B0.041600.446600.110500.1260*
H22A0.169000.414900.246900.0980*
H22B0.251400.338900.198800.0980*
U11U22U33U12U13U23
S10.0631 (3)0.0819 (4)0.1212 (5)−0.0041 (3)0.0155 (3)0.0461 (4)
N10.0531 (7)0.0518 (9)0.0451 (8)−0.0037 (6)0.0063 (6)0.0022 (7)
N20.0498 (7)0.0496 (8)0.0461 (8)0.0028 (6)0.0061 (6)0.0030 (6)
N30.0568 (8)0.0579 (9)0.0562 (9)0.0096 (7)0.0069 (7)0.0065 (7)
C10.0478 (8)0.0543 (11)0.0468 (10)−0.0099 (7)0.0015 (7)0.0064 (8)
C20.0643 (11)0.0787 (14)0.0501 (11)−0.0184 (10)0.0035 (8)0.0113 (10)
C30.0692 (12)0.0802 (16)0.0676 (13)−0.0205 (11)−0.0033 (10)0.0307 (12)
C40.0626 (11)0.0596 (12)0.0941 (17)−0.0073 (9)−0.0038 (11)0.0271 (12)
C50.0598 (10)0.0516 (11)0.0762 (13)−0.0010 (8)0.0049 (9)0.0094 (10)
C60.0446 (8)0.0500 (10)0.0515 (10)−0.0047 (7)0.0008 (7)0.0094 (8)
C70.0443 (8)0.0503 (10)0.0441 (9)−0.0025 (7)0.0047 (6)0.0023 (7)
C80.0832 (13)0.0683 (14)0.0568 (11)0.0026 (10)0.0175 (9)−0.0095 (10)
C90.0565 (9)0.0501 (10)0.0443 (9)0.0013 (7)0.0044 (7)0.0030 (8)
C100.0633 (10)0.0690 (13)0.0535 (10)0.0197 (9)0.0143 (8)0.0077 (10)
C110.1043 (16)0.0682 (15)0.0667 (13)0.0194 (12)0.0196 (12)0.0080 (11)
C120.133 (2)0.0744 (17)0.117 (2)0.0412 (16)0.055 (2)0.0263 (16)
C130.110 (2)0.147 (3)0.104 (2)0.073 (2)0.0394 (18)0.062 (2)
C140.0856 (17)0.159 (3)0.0791 (17)0.052 (2)0.0083 (13)0.029 (2)
C150.0686 (12)0.1101 (19)0.0644 (13)0.0266 (12)0.0061 (10)0.0061 (13)
C160.0604 (10)0.0609 (12)0.0541 (10)0.0051 (8)0.0165 (8)0.0017 (9)
C170.0694 (11)0.0609 (12)0.0528 (11)0.0152 (9)0.0077 (8)−0.0019 (9)
C180.1018 (16)0.0905 (17)0.0537 (12)0.0079 (13)0.0156 (11)0.0038 (12)
C190.141 (3)0.133 (3)0.0545 (14)0.023 (2)−0.0003 (15)0.0003 (15)
C200.114 (2)0.105 (2)0.0840 (18)0.0193 (17)−0.0204 (16)−0.0297 (16)
C210.0878 (16)0.127 (2)0.0957 (19)−0.0097 (15)0.0007 (14)−0.0336 (18)
C220.0780 (14)0.0992 (18)0.0685 (14)−0.0149 (12)0.0116 (11)−0.0101 (13)
S1—C91.6968 (18)C20—C211.500 (4)
N1—C11.388 (2)C21—C221.518 (4)
N1—C71.339 (2)C2—H20.9300
N1—C81.460 (3)C3—H30.9300
N2—C61.392 (2)C4—H40.9300
N2—C71.339 (2)C5—H50.9300
N2—C161.466 (2)C8—H8A0.9600
N3—C91.286 (2)C8—H8B0.9600
N3—C101.416 (3)C8—H8C0.9600
C1—C21.386 (3)C11—H110.9300
C1—C61.383 (2)C12—H120.9300
C2—C31.374 (3)C13—H130.9300
C3—C41.385 (3)C14—H140.9300
C4—C51.379 (3)C15—H150.9300
C5—C61.386 (3)C16—H16A0.9700
C7—C91.487 (2)C16—H16B0.9700
C10—C111.374 (3)C17—H170.9800
C10—C151.375 (3)C18—H18A0.9700
C11—C121.396 (4)C18—H18B0.9700
C12—C131.366 (5)C19—H19A0.9700
C13—C141.350 (7)C19—H19B0.9700
C14—C151.371 (5)C20—H20A0.9700
C16—C171.505 (3)C20—H20B0.9700
C17—C181.514 (3)C21—H21A0.9700
C17—C221.514 (3)C21—H21B0.9700
C18—C191.517 (4)C22—H22A0.9700
C19—C201.495 (5)C22—H22B0.9700
C1—N1—C7108.81 (14)N1—C8—H8B110.00
C1—N1—C8125.17 (14)N1—C8—H8C109.00
C7—N1—C8125.97 (15)H8A—C8—H8B110.00
C6—N2—C7108.94 (14)H8A—C8—H8C109.00
C6—N2—C16125.52 (15)H8B—C8—H8C109.00
C7—N2—C16125.48 (15)C10—C11—H11120.00
C9—N3—C10120.80 (16)C12—C11—H11120.00
N1—C1—C2131.24 (17)C11—C12—H12120.00
N1—C1—C6106.88 (14)C13—C12—H12120.00
C2—C1—C6121.87 (17)C12—C13—H13120.00
C1—C2—C3116.26 (19)C14—C13—H13120.00
C2—C3—C4122.0 (2)C13—C14—H14120.00
C3—C4—C5121.9 (2)C15—C14—H14120.00
C4—C5—C6116.21 (19)C10—C15—H15120.00
N2—C6—C1106.42 (15)C14—C15—H15120.00
N2—C6—C5131.86 (17)N2—C16—H16A109.00
C1—C6—C5121.70 (17)N2—C16—H16B109.00
N1—C7—N2108.95 (15)C17—C16—H16A109.00
N1—C7—C9124.16 (15)C17—C16—H16B109.00
N2—C7—C9126.89 (15)H16A—C16—H16B108.00
S1—C9—N3133.19 (14)C16—C17—H17108.00
S1—C9—C7115.18 (12)C18—C17—H17108.00
N3—C9—C7111.63 (15)C22—C17—H17108.00
N3—C10—C11122.96 (18)C17—C18—H18A109.00
N3—C10—C15117.92 (19)C17—C18—H18B109.00
C11—C10—C15118.8 (2)C19—C18—H18A109.00
C10—C11—C12120.0 (2)C19—C18—H18B109.00
C11—C12—C13119.6 (3)H18A—C18—H18B108.00
C12—C13—C14120.6 (4)C18—C19—H19A109.00
C13—C14—C15120.2 (3)C18—C19—H19B109.00
C10—C15—C14120.9 (3)C20—C19—H19A109.00
N2—C16—C17113.91 (15)C20—C19—H19B109.00
C16—C17—C18109.15 (16)H19A—C19—H19B108.00
C16—C17—C22113.59 (17)C19—C20—H20A109.00
C18—C17—C22109.66 (18)C19—C20—H20B109.00
C17—C18—C19112.2 (2)C21—C20—H20A109.00
C18—C19—C20112.4 (2)C21—C20—H20B109.00
C19—C20—C21112.2 (3)H20A—C20—H20B108.00
C20—C21—C22111.2 (3)C20—C21—H21A109.00
C17—C22—C21111.2 (2)C20—C21—H21B109.00
C1—C2—H2122.00C22—C21—H21A109.00
C3—C2—H2122.00C22—C21—H21B109.00
C2—C3—H3119.00H21A—C21—H21B108.00
C4—C3—H3119.00C17—C22—H22A109.00
C3—C4—H4119.00C17—C22—H22B109.00
C5—C4—H4119.00C21—C22—H22A109.00
C4—C5—H5122.00C21—C22—H22B109.00
C6—C5—H5122.00H22A—C22—H22B108.00
N1—C8—H8A109.00
C7—N1—C1—C2178.50 (18)C1—C2—C3—C40.7 (3)
C8—N1—C1—C20.9 (3)C2—C3—C4—C5−1.1 (3)
C7—N1—C1—C6−0.28 (18)C3—C4—C5—C61.1 (3)
C8—N1—C1—C6−177.88 (16)C4—C5—C6—C1−0.8 (3)
C1—N1—C7—N20.09 (19)C4—C5—C6—N2177.97 (18)
C8—N1—C7—N2177.66 (16)N2—C7—C9—N3112.86 (19)
C1—N1—C7—C9179.56 (15)N1—C7—C9—S1113.46 (16)
C8—N1—C7—C9−2.9 (3)N1—C7—C9—N3−66.5 (2)
C6—N2—C7—N10.14 (18)N2—C7—C9—S1−67.2 (2)
C16—N2—C7—N1−177.02 (15)N3—C10—C11—C12−172.9 (2)
C6—N2—C7—C9−179.31 (15)C11—C10—C15—C141.9 (3)
C16—N2—C7—C93.5 (3)C15—C10—C11—C120.2 (3)
C6—N2—C16—C17105.6 (2)N3—C10—C15—C14175.3 (2)
C7—N2—C16—C17−77.7 (2)C10—C11—C12—C13−2.0 (4)
C7—N2—C6—C5−179.20 (18)C11—C12—C13—C141.7 (5)
C7—N2—C6—C1−0.31 (18)C12—C13—C14—C150.3 (5)
C16—N2—C6—C1176.85 (15)C13—C14—C15—C10−2.2 (4)
C16—N2—C6—C5−2.0 (3)N2—C16—C17—C18176.01 (17)
C9—N3—C10—C11−61.4 (3)N2—C16—C17—C22−61.3 (2)
C9—N3—C10—C15125.6 (2)C16—C17—C18—C19180.0 (2)
C10—N3—C9—S1−2.0 (3)C22—C17—C18—C1954.9 (3)
C10—N3—C9—C7178.02 (15)C16—C17—C22—C21−179.6 (2)
N1—C1—C6—N20.36 (18)C18—C17—C22—C21−57.1 (3)
C6—C1—C2—C3−0.4 (3)C17—C18—C19—C20−52.9 (3)
N1—C1—C2—C3−179.03 (18)C18—C19—C20—C2152.0 (4)
N1—C1—C6—C5179.38 (16)C19—C20—C21—C22−54.1 (4)
C2—C1—C6—N2−178.56 (16)C20—C21—C22—C1757.1 (3)
C2—C1—C6—C50.5 (3)
D—H···AD—HH···AD···AD—H···A
C16—H16A···S1i0.972.733.683 (2)167
C16—H16B···S10.972.783.451 (2)127
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
C16—H16A⋯S1i0.972.733.683 (2)167
C16—H16B⋯S10.972.783.451 (2)127

Symmetry code: (i) .

  2 in total

1.  A short history of SHELX.

Authors:  George M Sheldrick
Journal:  Acta Crystallogr A       Date:  2007-12-21       Impact factor: 2.290

2.  Synthesis and antimicrobial activity of substituted benzimidazole, benzothiazole and imidazole derivatives.

Authors:  H Küçükbay; E Cetinkaya; R Durmaz
Journal:  Arzneimittelforschung       Date:  1995-12
  2 in total
  3 in total

1.  1-(Prop-2-en-1-yl)-3-[(trimethyl-sil-yl)meth-yl]benzimidazolium bromide monohydrate.

Authors:  Zeliha Baktır; Mehmet Akkurt; Nihat Sireci; Hasan Küçükbay
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-08-25

2.  1-Benzyl-3-[(trimethyl-sil-yl)meth-yl]benzimidazolium chloride monohydrate.

Authors:  Mehmet Akkurt; Ismail Celik; Hasan Küçükbay; Nihat Sireci; Orhan Büyükgüngör
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-06-26

3.  2-(Furan-2-yl)-1,3-bis(furan-2-ylmeth-yl)-1H-benzimidazol-3-ium chloride monohydrate.

Authors:  David K Geiger; H Cristina Geiger; Jared M Deck
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-09-26
  3 in total

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